ChEBI


ChEBI
ChEBI
Content
Description Chemical database
Data types captured Chemical Entities of Biological Interest
Contact
Research center European Molecular Biology Laboratory
Laboratory United Kingdom European Bioinformatics Institute
Primary Citation [1]
Access
Website ChEBI
Download URL Downloads
Web Service URL Web Service
Sparql endpoint BIO2RDF
Tools
Web ChEBI Website
Miscellaneous
Data release frequency monthly
Curation policy Manually curated

Chemical Entities of Biological Interest, also known as ChEBI,[1][2] is a database and ontology of molecular entities focused on 'small' chemical compounds, that is part of the Open Biomedical Ontologies effort. The term "molecular entity" refers to any "constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer, etc., identifiable as a separately distinguishable entity".[3] The molecular entities in question are either products of nature or synthetic products used to intervene in the processes of living organisms. Molecules directly encoded by the genome, such as nucleic acids, proteins and peptides derived from proteins by proteolytic cleavage, are not as a rule included in ChEBI.

ChEBI uses nomenclature, symbolism and terminology endorsed by the International Union of Pure and Applied Chemistry (IUPAC) and Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (NC-IUBMB).

Contents

Scope and Access

All data in the database is non-proprietary or is derived from a non-proprietary source. It is thus freely accessible and available to anyone. In addition, each data item is fully traceable and explicitly referenced to the original source.

The ChEBI data is available through a public web interface, Web Service and downloads.

See also

References

  1. ^ a b De Matos, P.; Alcantara, R.; Dekker, A.; Ennis, M.; Hastings, J.; Haug, K.; Spiteri, I.; Turner, S. et al. (2009). "Chemical Entities of Biological Interest: An update". Nucleic Acids Research 38 (Database issue): D249–54. doi:10.1093/nar/gkp886. PMC 2808869. PMID 19854951. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2808869. 
  2. ^ Degtyarenko, K.; De Matos, P.; Ennis, M.; Hastings, J.; Zbinden, M.; McNaught, A.; Alcantara, R.; Darsow, M. et al. (2007). "ChEBI: A database and ontology for chemical entities of biological interest". Nucleic Acids Research 36 (Database issue): D344–50. doi:10.1093/nar/gkm791. PMC 2238832. PMID 17932057. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2238832. 
  3. ^ IUPAC, Compendium of Chemical Terminology, 2nd ed. (the "Gold Book") (1997). Online corrected version:  (2006–) "molecular entity".

External links



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